Molecules, Biodiversity, Food and Health Biological Molecules Biological Molecules (a) describe how hydrogen bonding occurs between water molecules, and relate this, and other properties of water, to the roles of water in living organisms; Water is a polar molecule. This is because the oxygen atom pulls the shared electrons towards it, meaning that water is slightly negatively charged at the oxygen and positively charged at the hydrogen ends, so they can form hydrogen bonds with each other. This are continuing breaking and reforming, so the molecules can move around. Property of water Importance Examples Hydrogen bonds Solvent Metabolic processes in all 70-95% of cytoplasm is If the solute is slightly organisms rely on chemicals water. Dissolved chemicals charged or ionic, they will being able to react together take part in processes such as interact with water in solution respiration and molecules. The water photosynthesis in living molecules will cluster around organisms the charged parts, keeping solute molecules apart Liquid The movement of materials Blood in animals and the Water remains liquid over a around organisms, both in vascular tissue in plants use large temperature range and cells and on a large scale in water as a liquid transport can act as a solvent for many multicellular organisms medium chemicals requires a liquid transport medium Cohesion Water molecules stick to Transport of water in the A drop of water on the waxy each other creating surface xylem relies on water surface of the leaf looks tension at the water surface. molecules sticking to each almost spherical- it hardly Cohesion also makes long, other as they are pulled up wets the leaf at all. This is thin water columns very the xylem in the transpiration because hydrogen bonds pull strong and difficult to break stream the water in at the surface. This is cohesion, which also Some small organisms make results in surface tension use of surface tension to ‘walk on water’ Freezing Water freezes, forming ice on Organisms such as polar Water is unusual because its the surface. Water beneath bears live in an environment solid form is less dense than the surface becomes of floating ice packs. its liquid form. As water insulated and less likely to cools, its density increases freeze Lakes tend not to freeze until the temperature drops completely, so aquatic to 4˚C, the density increases organisms are not killed as again, so ice floats on water. temperatures fall Thermal stability Large bodies of water have Oceans provide a relatively The hydrogen bonds in liquid fairly constant temperatures. stable environment in terms water restrict the movement of temperature of the water molecules, so a Evaporation of water can relatively large amount of cool surfaces by removing Many land-based organisms water is needed to increase heat. use evaporation as a cooling the temperature of water mechanism, for example in panting or sweating The evaporation of water uses a relatively large amount of energy, so water evaporating from the surface ‘removes’ heat energy from the surface Metabolic Water takes part as a Water molecules are used in reactant in some chemical hydrolysis reactions and in processes the process of photosynthesis (b) describe, with the aid of diagrams, the structure of an amino acid; H N-CHR-COOH 2 ALM June 2010 Molecules, Biodiversity, Food and Health (c) describe, with the aid of diagrams, the formation and breakage of peptide bonds in the synthesis and hydrolysis of dipeptides and polypeptides; Synthesis The –OH from one amino acid and the –H from the –COOH from the other are removed to make water, and the C and the N join together via a peptide bond (CONH) Hydrolysis A water molecule is used to break the peptide bond. The –H joins back to the N, and the – OH back to the C (d) explain, with the aid of diagrams, the term primary structure; The sequence of amino acids found in a protein molecule (e) explain, with the aid of diagrams, the term secondary structure with reference to hydrogen bonding; The coiling or folding of parts of a protein molecule due to the formation of hydrogen bonds formed at the protein is synthesised. The main forms are the α-helix and the β-pleated sheet. (f) explain, with the aid of diagrams, the term tertiary structure, with reference to hydrophobic and hydrophilic interactions, disulfide bonds and ionic interactions; The overall three-dimensional structure of a protein molecule. It is the result of interactions between parts of the protein molecule such as hydrogen bonding, formation of disulfide bridges and hydrophobic interactions (g) explain, with the aid of diagrams, the term quaternary structure, with reference to the structure of haemoglobin; Protein structure where a protein consists of more than one polypeptide chain. Haemoglobin has a quaternary structure as it is made up on four polypeptide chains. (h) describe, with the aid of diagrams, the structure of a collagen molecule; Made up of three polypeptide chains, each about 1000 amino acids long, wound around each other. Hydrogen and covalent bonds (cross links) form between the chains. The cross links are staggered to make the molecule stronger. (i) compare the structure and function of haemoglobin (as an example of a globular protein) and collagen (as an example of a fibrous protein); Haemoglobin Collagen Globular protein Fibrous protein Soluble in water Insoluble in water Wide range of amino acid constituents in primary Approx. 35% of the molecule’s primary structure structure is glycine Contains a prosthetic group- a haem Does not have a prosthetic group Much of the molecule is wound into alpha-helix Much of the molecule consists of left-handed structures helix structures (j) describe, with the aid of diagrams, the molecular structure of alpha-glucose as an example of a monosaccharide carbohydrate; (k) state the structural difference between alpha- and beta-glucose; In α-glucose the –OH on carbon 1 is below the plane of the ring. In β-glucose it is above the chain of the ring. (l) describe, with the aid of diagrams, the formation and breakage of glycosidic bonds in the synthesis and hydrolysis of a disaccharide (maltose) and a polysaccharide (amylose); Disaccharide Formation Water is eliminated as the –OH from one glucose and the –H from an –OH from the other leave. This means that the remaining O joins to the C on the other glucose making a disaccharide Breaking Water is used to break the glycosidic bond between the subunits. The –H returns to the O and the –OH returns to C 4 In polysaccharides, there are many glucose subunits joined together by 1,4-glycosidic bonds. ALM June 2010 Molecules, Biodiversity, Food and Health (m) compare and contrast the structure and functions of starch (amylose) and cellulose; Amylose Made up of α-glucose Straight chain Tends to coil up Plant storage polysaccharide Cellulose Made up of β-glucose In a chain, alternate glucose subunits are inverted Forms straight chains The β-glycosidic bond can only be broken down by a cellulose enzyme, which herbivors have, but humans do not Forms plant cell walls (n) describe, with the aid of diagrams, the structure of glycogen; Mostly like amylase, as in it has many 1-4 glycosidic bonds, but there are 9% 1-6 branches. (o) explain how the structures of glucose, starch (amylose), glycogen and cellulose molecules relate to their functions in living organisms; Glucose Simplists sugar. Used in respiration Amylose Insoluble in water so does not affect the water potential of the cell Glycogen Because it is so highly branched it can be broken down the glucose very quickly Cellulose Hundreds of the polypeptide chains lie side by side forming hydrogen bonds with each other- very strong The arrangement of macrofibrils in cell wells: allows water to move in and out easily determines how a cell can grow or change shape Cell walls can be reinforced with other substances to provide extra support, or make the walls waterproof (p) compare, with the aid of diagrams, the structure of a triglyceride and a phospholipid; Triglyceride Glycerol plus three fatty acids Phospholipid Glycerol plus two fatty acids and a phosphate group (q) explain how the structures of triglyceride, phospholipid and cholesterol molecules relate to their functions in living organisms; Triglyceride Compact energy store Insoluble in water Does not affect cell water potential Phospholipid Part hydrophilic, part hydrophobic, so ideal basis for cell surface membranes Cholesterol Small, thin molecules that can fit into the lipid bilayer giving strength and stability (r) describe how to carry out chemical tests to identify the presence of the following molecules: protein (biuret test), If present, turns from pale blue to lilac Reducing sugars (Benedict’s test), Add Benedict’s, heat to 80˚C. From Blue to orange-red Non-reducing sugars (Benedict’s test), If Reducing sugars test is negative, boil with hydrochloric acid, cool and neutralise with sodium hydrogencarbonate. Repeat Benedict’s test. starch (iodine solution) Turns from yellow to blue-black if starch is present lipids (emulsion test); Mix the ethanol Pour into water If an emulsion forms, a lipid is present ALM June 2010 Molecules, Biodiversity, Food and Health (r) describe how the concentration of glucose in a solution may be determined using colorimetry Benedict’s test reveals the presence of reducing sugars It results in an orange-brown precipitate The more reducing sugar there is present, the more precipitate will be formed and the more Benedict’s solution will be ‘used up’. If the precipitate is filtered out, the concentration of the remaining solution can be measured This will tell you how much Benedict’s solution has been used up, and this can be used to estimate the concentration of reducing sugar in the original sample Zero the device using a cuvette containing a ‘blank’- usually water Prepare a calibration curve by Taking a range of known concentrations of reducing sugars Carry out Benedict’s test on each one then filter the precipitate out of each solution. Use a calorimeter to give readings of the amount of light passing through the solutions Plot the readings on a graph to show % transmission against concentration Measure the % transmission of the unknown in the calorimeter Use this to read the equivalent reducing sugar concentration from the % transmission Nucleic acids (a) state that deoxyribonucleic acid (DNA) is a polynucleotide, usually double stranded, made up of nucleotides containing the bases adenine (A), thymine (T), cytosine (C) and guanine (G); (b) state that ribonucleic acid (RNA) is a polynucleotide, usually single stranded, made up of nucleotides containing the bases adenine (A), uracil (U), cytosine (C) and guanine (G); (c) describe, with the aid of diagrams, how hydrogen bonding between complementary base pairs (A to T, G to C) on two antiparallel DNA polynucleotides leads to the formation of a DNA molecule, There are two types of nucleotide bases- pyramidines and purines. They always pair up together, with the purine Adenine always with the pyramidine Thymine, and the purine Guanine always with the pyramidine Cytosine. There are two hydrogen bonds between A and T, and three between G and C. The strands are antiparallel because they run in opposite directions- the sugars are pointing in opposite directions. and how the twisting of DNA produces its ‘double-helix’ shape; The antiparallel chains twist like a rope ladder to form the final structure- a double helix. (d) outline, with the aid of diagrams, how DNA replicates semi-conservatively, with reference to the role of DNA polymerase; The double helix is untwisted The hydrogen bonds between the bases are broken apart and the DNa ‘unzips’ to expose the bases Free DNA nucleotides are hydrogen bonded onto their exposed complementary bases DNA polymerade catalyses the formation of covalent bonds between the phosphate of one molecule and the sugar of the next This continues all the way down the DNA until there are two identical strands These are ‘proof-read’ by DNA polymerase to prevent mistakes (e) state that a gene is a sequence of DNA nucleotides that codes for a polypeptide; (f) outline the roles of DNA and RNA in living organisms (the concept of protein synthesis must be considered in outline only). Protein synthesis The required gene can be exposed by splitting the hydrogen bonds that hold the double helix together in that region RNA nucleotides form a complementary strand (mRNA). This is a copy of the DNA coding strand The mRNA peels away from the DNA and leaves the nucleus from the nuclear pore The mRNA attaches to a ribosome Then tRNA molecules bring amino acids to the ribosome in the correct order, according to the base sequence on the mRNA The amino acids are joined together by peptide bonds to give a protein with a specific tertiary structure Enzymes (a) state that enzymes are globular proteins, with a specific tertiary structure, which catalyse metabolic reactions in living organisms; (b) state that enzyme action may be intracellular or extracellular; ALM June 2010 Molecules, Biodiversity, Food and Health (c) describe, with the aid of diagrams, the mechanism of action of enzyme molecules, with reference to specificity, The active site of an enzyme is a specific shape, depending on the reaction that it catalyses, meaning that other molecules won’t fit into the active site active site, The area on an enzyme to which the substrate binds lock and key hypothesis, The theory of enzyme action in which the enzyme active site is complementary to the substrate molecule, like a lock and key induced-fit hypothesis, The theory of enzyme action in which the enzyme molecule changes shape to fit the substrate molecule more closely as it binds to it enzyme-substrate complex, The intermediary formed when a substrate molecule binds to an enzyme molecule enzyme-product complex The intermediate structure in which product molecules are bound to an enzyme molecule lowering of activation energy; Enzymes reduce the activation enthalpy so the reaction can proceed at a much lower temperature (d) describe and explain the effects of pH, Low pH = lots of H+ ions H+ ions have a positive charge Either extreme of H+ ion concentration can interfere with the hydrogen and ionic bonds holding the tertiary structure together. The pH affects the charge of the amino acids at the active site, so the properties of the active site change and the substrate can no longer bind At high pH values, a –COOH group will dissociate to become a charged –COO- group temperature, Up to a certain point, increasing temperature will increase the rate of reaction, as there will be more collisions between enzymes and the substrate, and more of these collisions will have the required activation enthalpy for the reaction to proceed. But heat also makes the molecules vibrate. This puts strain on the inter-molecular bonds, and some of the weaker bonds (hydrogen bond and ionic bonds) may break. In enzymes there are large numbers of these bonds holding the tertiary structure, and especially the active site, in place. As the heat increases, more and more of these bonds are broken The tertiary structure disintegrates further and further The rate of reaction decreases If enough of these bonds are broken, the entire tertiary structure will unravel and the enzyme will stop working This is not reversible and is known as denaturation enzyme concentration As enzyme concentration increases, the rate of reaction increases linearly as there are more active sites are available, until the substrate concentration becomes a limiting factor and the rate stops increasing substrate concentration As the substrate concentration rises, the rate of reaction rises because there are more substrate molecules to react. At higher concentrations, all of the active sites become filled, so the rate of reaction remains the same on enzyme activity; ALM June 2010 Molecules, Biodiversity, Food and Health (e) describe how the effects of pH, A starch-agar plate is made up by mixing starch with agar. The mixture is poured into a petridish and left to set. It forms a semi-rigid gel in the plate. Cut wells into each plate using a cork borer Into each well place the same volume of a different pH buffer solution Into each well except one, place an identical volume of stock amylase solution Into the well without the amylase, add an equal volume of distilled water as a control Incubate for 24h in a dry oven at 35˚C Flood the plate with an iodine solution and rise with water Measure the diameter of the cleared zone- this gives an indication of how much substrate has been turned into product temperature, Take samples of potato tissue (containing catalase) using a cork borer then stick into discs of equal thickness Place an equal number of discs in each of seven tissues and place one in each of a range of water baths from 20-80˚C Place an equal volume of pH 7 buffer and hydrogen peroxide into each of sever separate test tubes and place one in each water bath. Allow to equilibrate. Taking each in turn, add peroxide/buffer mixture to the potato discs, then fix a stopper and a side arm into the tube. Close the clip. As oxygen gas is produced in the reaction it pushes the water bubble along the side arm. Time how long it takes for the bubble to move 5cm. enzyme concentration Use the reaction as before, but keeping the temperature constant, and instead having a different number of potato discs in each test tube substrate concentration As before, but keeping the temperature and the number of potato discs the same and changing the volume of hydrogen peroxide in each test tube on enzyme activity can be investigated experimentally; (f) explain the effects of competitive and non-competitive inhibitors on the rate of enzyme-controlled reactions, with reference to both reversible and non-reversible inhibitors; Competitive inhibitor molecules Have a similar shape to that of the substrate molecule. This means that they occupy the active site, forming enzyme-inhibitor complexes. These complexes do not lead to the formation of products because the inhibitor is not identical to the substrate. The level of inhibition depends on the concentrations of inhibitor and substrate. Where the number of substrate molecules is increased, the level of inhibition decreases because a substrate molecule is more likely than an inhibitor molecule to collide with the active site. Most competitive inhibitors do not bind permamently to the active site. They bind for a short period of time and then leave. Their action is described as reversible, as the removal of the inhibitor form the reaction mixture leaves the enzyme molecule unaffected. Non-competitive inhibitors Do not compete with substrate molecules for a place in the active site. Instead, they attach to the enzyme, molecule in a region away from the active site. The attachment of non competitive inhibitors distorts the tertiary structure of the enzyme molecule, leading to the shape of the active site changing. This means that they substrate no longer fits into the active site so the enzyme-substrate complexes cannot form and the reaction rate decreases. The level of inhibition depends on the number of inhibitor molecules present. If there are enough inhibitor molecules to bind to all of the enzyme molecules presend, then the enzyme controlled reaction will stop. Changing the substrate concentration will have no effect on this form of inhibition Most non-competitive inhibitors bind permanently to the enzyme molecule. The inhibition is irreversible, and any enzyme molecule bound by inhibitor molecules are effectively denatured. (g) explain the importance of cofactors and coenzymes in enzyme-controlled reactions; Cofactors Ions that increase the rate of enzyme-controlled reactions. Their presence allows enzyme- substrate complexes to form more easily. ALM June 2010 Molecules, Biodiversity, Food and Health Coenzymes Small, organic, non-protein molecules that bind for a short period of time to the active site. They may bind just before, or at the same time, as the substrate binds. In many reactions, coenzymes take part in the reaction, and like substrate, are changed in some way. Unlike the substrate, coenzymes are recycled back to take part in the reaction again. The role of coenzymes is often to carry chemical groups between enzymes so they link together enzyme-controlled reactions that need to take place in sequence. Some coenzymes are permanent parts of the enzymes- prosthetic groups. These contribute to the shape of the enzyme. (h) state that metabolic poisons may be enzyme inhibitors, and describe the action of one named poison; Potassium Cyanide acts as a non-competitive inhibitor of the enzyme cytochrome oxidase, which is involved in the oxidation of ATP. When this is inhibited, aerobic respiration cannot occur, and so the organism can only respire anaerobically, which leads to a build up of lactic acid, toxic to the cells. (i) state that some medicinal drugs work by inhibiting the activity of enzymes ALM June 2010 Molecules, Biodiversity, Food and Health Food & Health Diet & Food Production (a) define the term balanced diet; A diet that contains all the nutrients of the nutrients requires for health and growth. (b) explain how consumption of an unbalanced diet can lead to malnutrition, with reference to obesity; Malnutrition is caused by an unbalances diet. Obesity is called by consuming too much energy and the excess energy is deposited as fat in the adipose tissues. Obesity is the condition in which excess fat deposition impairs health and it usually defined when a person has a BMI (BMI = Mass (kg) / (height (m) 2)) of 30 or over. This indicated a body weight of 20% or more above the weight recommended for the height. BMI Category <18.5 Underweight 18.5-25 Healthy 25-30 Overweight 30-35 Obese (class I) 35-40 Obese (class II) >40 Morbidly obese (c) discuss the possible links between diet and coronary heart disease (CHD); Excess salt in the diet decreases the water potential of the blood. As a result, more water is held in the blood and blood pressure increases. This can lead to hypertension, which can damage the inner lining of the arteries, which is one of the early steps in the process of atherosclerosis Saturated fats can cause damage to the heart 45-47% of deaths from cholesterol have been linked to high blood cholesterol levels (d) discuss the possible effects of a high blood cholesterol level on the heart and circulatory system, with reference to high-density lipoproteins (HDL) and low-density lipoprotein (LDL); Cholesterols are transported around the body in the form of lipoproteins. High Density Lipoproteins A combination of unsaturated fats, cholesterol and protein. They tend to carry cholesterol from the body tissues to the liver, where the cholesterol is used to make bile or broken down. Therefore, high levels of HDL are associated with reducing blood cholesterol levels. They cal reduce deposition on the artery walls. Low Density Lipoproteins Produced by the combination of saturated fats, cholesterol and protein. They tend to carry cholesterol from the liver to the body tissues. A high blood concentration of LDLs cause dispositions on the artery walls. Saturated fats decrease the activity of LDL receptors, so as the blood LDL concentration rises; less is removed from the blood, resulting in higher concentrations of LDL in the blood, which are then deposited on the artery walls. (e) explain that humans depend on plants for food as they are the basis of all food chains. (No details of food chains are required); Plants can carry out photosynthesis to convert light energy to chemical energy. They also absorb plants from the soil and manufacture a range of other biological molecules. Herbivores make use of these biological molecules when they eat and digest food. Humans eat both plants and herbivores, gaining our nutrition both directly and indirectly. (f) outline how selective breeding is used to produce crop plants with high yields, disease resistance and pest resistance; A pair of plants which display the desired characteristics are allowed to reproduce. The offspring produced are sorted carefully to select those with the best combination of characteristics and only those offspring are allowed to reproduce. If this careful selection and controlled reproduction continues for many generations, the required characteristic becomes more exaggerated. e.g. Tomatoes have been bred with improved disease resistance (g) outline how selective breeding is used to produce domestic animals with high productivity; (h) A pair of animals which display the desired characteristics are allowed to reproduce. The offspring produced are sorted carefully to select those with the best combination of characteristics and only those offspring are allowed to reproduce. If this careful selection and controlled reproduction continues for many generations, the required characteristic becomes more exaggerated. e.g. chickens bred for eggs lay over 300 eggs a year, whereas their unselective relatives can lay only 20-30 ALM June 2010 Molecules, Biodiversity, Food and Health (h) describe how the use of fertilisers and pesticides with plants and the use of antibiotics with animals can increase food production; Fertilisers Replace minerals in the soil which may have been removed by the previous crops. They contain Nitrate, Phosphate and Potassium. They increase the rate of growth and the overall size of crops Pesticides Kill organisms that cause diseases in crops. These organisms would reduce yield or kill the crop. Many crops are sprayed with fungicides to reduce fungal growth in the leaves or roots. Sheep are dipped to kill ticks. Antibiotics Infected animals can be treated with antibiotics to reduce the spread amongst animals that are intensively farmed in close proximity to each other. Such diseases could reduce the growth performance of the animals and may impair reproduction. (i) describe the advantages and disadvantages of using microorganisms to make food for human consumption; Advantages - Production of protein can be many times faster than that of animal or plant protein - Production can be increased or decreased according to demand - No animal welfare issues - They provide a good source of protein for vegetarians - The protein contains no animal fat or cholesterol - Single-cell protein production could be combined with removal of waste products Disadvantages - Many people may not want to eat fungal protein that has been grown on waste - The microorganisms are grown in huge fermenters and need to be isolated from the material on which they grow - The protein has to be purified to ensure it is uncontaminated - The conditions needed to grow the useful organisms are ideal for pathogenic organisms. Care needs to be taken to ensure that the culture is not infected - The protein does not have the taste or texture of traditional protein sources (j) outline how salting, Dehydrates any organisms as water leaves them by osmosis adding sugar, Dehydrates any organisms as water leaves them by osmosis pickling, Acid pH denatures any microorganism’s proteins and enzymes freezing, Retards enzyme activity so their metabolism, growth and reproduction is slow heat treatment Kills harmful organisms irradiation Kills organisms by disrupting their DNA structure can be used to prevent food spoilage by microorganisms. Health and disease (a) discuss what is meant by the terms health and disease; Health A state of mental, physical and social wellbeing Disease A departure from good health caused by a malfunction of the mind or body (b) define and discuss the meanings of the terms parasite and pathogen; Parasite An organism that lives on or in another living thing causing harm to its host Pathogen An organism that causes disease ALM June 2010 Molecules, Biodiversity, Food and Health (c) describe the causes and means of transmission of malaria, AIDS/HIV and TB (knowledge of the symptoms of these diseases is not required); Malaria If the host already has malaria, the female anopheles mosquito will suck the parasite gametes into its own stomach The gametes fuse and the zygotes develop in the mosquito’s stomach Infective stages are formed and these move to the mosquito’s salivary glands When the mosquito bites another person, it injects a little saliva as an anticoagulant The saliva contains the infective stages of the parasite In the human host, the infective stages enter the liver where they multiply before passing into the blood again In the blood they enter red blood cells, where the gametes are produced HIV/AIDS The virus enters the body by Exchange of bodily fluids such as blood to blood contact Unprotected sexual intercourse Unscreened blood transfusions Use of unsterilised surgical equipment Sharing hypodermic needles Accidents such as ‘needlestick’ Across the placenta or during childbirth From mother to baby during breastfeeding It can remain unactive in the body for many years. Once the virus becomes active it attacks and destroys T helper cells in the immune system, effectively rendering the immune system useless Tuberculosis The bacteria are contained in the tiny droplets of liquids which are released when an infected person coughs, sneezes or talks. But it takes close contact with an infected person over a long period of time to contract the disease. There are a number of conditions which make contraction and spread more likely Overcrowding- many people eating and sleeping together in one house Poor ventilation Poor health- particularly if a person has HIV/AIDS Poor diet Homelessness Living or working with people who are migrated from areas where TB is more common TB can also be contracted from the milk or meat of cattle. (d) discuss the global impact of malaria, AIDS/HIV and TB; Malaria Kills about 3 million people annually Affects about 300 million people Currently limited to areas where the Anopheles mosquito can survive, which is currently the tropical regions. But, with global warming, the Anopheles mosquito may be able to survive further north, even into parts of Europe. HIV/AIDS Spreading into pandemic proportions all over the world Approximately 45 million people living with HIV/AIDS at the end of 2005 More than half of these are in Sub-Saharan Africa About 5 million people infected each year By the end of 2005, nearly 30 million people had died from HIV/AIDS related illnesses It is thought that the number of people living with HIV/AIDS in China will soon exceed the number in any other country Tuberculosis Approximately 1% of the population is infected every year, and 10-15% of those will go on to develop the disease In 2005 there were 8.8 million new cases of Tuberculosis and 1.6 million people died. Up to 30% of the world’s population may be infected with TB ALM June 2010
Description: